QC and Data Analysis Report
Date QC run: 2023-12-07
Any questions, please contact: neurometabolomics@mssm.edu
Sample Information
Input Data
Type of value/normalization: pool_ratio
Internal Standard Plot
Sample group for x-axis:Input_Name
Sample group for color:no_color
Scale for y axis:
Plots of Metabolic Compounds
Summary table
Summary plot
Stats Table
*students t-test performed for pairwise comparisons
*two way anova and Tukey post-hoc test performed for table below
PCA plot
Percent variance of each PC
PCA loadings
Software used
R packages
## R version 4.1.1 (2021-08-10)
## Platform: x86_64-pc-linux-gnu (64-bit)
## Running under: Ubuntu 20.04.5 LTS
##
## Matrix products: default
## BLAS: /usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so.3
## LAPACK: /usr/lib/x86_64-linux-gnu/openblas-pthread/liblapack.so.3
##
## locale:
## [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
## [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8
## [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
## [7] LC_PAPER=en_US.UTF-8 LC_NAME=C
## [9] LC_ADDRESS=C LC_TELEPHONE=C
## [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
##
## attached base packages:
## [1] grid stats graphics grDevices utils datasets methods
## [8] base
##
## other attached packages:
## [1] shinybusy_0.3.1 knitr_1.42 kableExtra_1.3.4
## [4] rmarkdown_2.20 readr_2.1.4 IsoCorrectoR_1.12.0
## [7] circlize_0.4.15 ComplexHeatmap_2.10.0 rstatix_0.7.2
## [10] ggpubr_0.6.0 ggfortify_0.4.15 shinydisconnect_0.1.0
## [13] plotly_4.10.1 shinycssloaders_1.0.0 rhandsontable_0.3.8
## [16] tibble_3.2.0 rio_0.5.29 shinyWidgets_0.7.6
## [19] shinydashboardPlus_2.0.3 shinythemes_1.2.0 shinydashboard_0.7.2
## [22] shinyjs_2.1.0 DT_0.27 ggplot2_3.4.1
## [25] dplyr_1.1.0 tidyr_1.3.0 shiny_1.7.4
##
## loaded via a namespace (and not attached):
## [1] colorspace_2.1-0 ggsignif_0.6.4 rjson_0.2.20
## [4] ellipsis_0.3.2 GlobalOptions_0.1.2 clue_0.3-60
## [7] rstudioapi_0.14 farver_2.1.1 bit64_4.0.5
## [10] fansi_1.0.4 xml2_1.3.3 codetools_0.2-18
## [13] doParallel_1.0.16 cachem_1.0.7 jsonlite_1.8.4
## [16] broom_1.0.4 cluster_2.1.2 png_0.1-7
## [19] compiler_4.1.1 httr_1.4.5 backports_1.4.1
## [22] fastmap_1.1.1 lazyeval_0.2.2 cli_3.6.0
## [25] later_1.3.0 htmltools_0.5.4 tools_4.1.1
## [28] gtable_0.3.1 glue_1.6.2 Rcpp_1.0.10
## [31] carData_3.0-5 cellranger_1.1.0 jquerylib_0.1.4
## [34] vctrs_0.5.2 svglite_2.1.1 crosstalk_1.2.0
## [37] iterators_1.0.13 xfun_0.37 stringr_1.5.0
## [40] openxlsx_4.2.5.2 rvest_1.0.3 mime_0.12
## [43] lifecycle_1.0.3 WriteXLS_6.3.0 scales_1.2.1
## [46] vroom_1.6.1 hms_1.1.2 promises_1.2.0.1
## [49] parallel_4.1.1 RColorBrewer_1.1-3 yaml_2.3.7
## [52] curl_5.0.0 memoise_2.0.1 gridExtra_2.3
## [55] sass_0.4.5 stringi_1.7.12 highr_0.10
## [58] S4Vectors_0.32.4 foreach_1.5.1 checkmate_2.1.0
## [61] BiocGenerics_0.40.0 zip_2.2.2 shape_1.4.6
## [64] systemfonts_1.0.4 rlang_1.1.0 pkgconfig_2.0.3
## [67] matrixStats_0.61.0 fontawesome_0.5.0 pracma_2.3.3
## [70] evaluate_0.20 purrr_1.0.1 labeling_0.4.2
## [73] htmlwidgets_1.6.1 bit_4.0.5 tidyselect_1.2.0
## [76] magrittr_2.0.3 R6_2.5.1 IRanges_2.28.0
## [79] generics_0.1.3 pillar_1.8.1 haven_2.5.2
## [82] foreign_0.8-81 withr_2.5.0 abind_1.4-5
## [85] crayon_1.5.2 car_3.1-1 utf8_1.2.3
## [88] tzdb_0.3.0 GetoptLong_1.0.5 readxl_1.4.2
## [91] data.table_1.14.8 forcats_1.0.0 webshot_0.5.4
## [94] digest_0.6.31 xtable_1.8-4 httpuv_1.6.9
## [97] stats4_4.1.1 munsell_0.5.0 viridisLite_0.4.1
## [100] bslib_0.4.2 quadprog_1.5-8Footer © 2023 GitHub, Inc. Footer navigation Terms Privacy Security Status Docs Contact GitHub Pricing API Training Blog About